• No results found

Accurate estimation of the illumination pattern’s orientation and wavelength in sinusoidal structured illumination microscopy

N/A
N/A
Protected

Academic year: 2022

Share "Accurate estimation of the illumination pattern’s orientation and wavelength in sinusoidal structured illumination microscopy"

Copied!
7
0
0

Laster.... (Se fulltekst nå)

Fulltekst

(1)

Accurate estimation of the illumination pattern ’ s orientation and wavelength in sinusoidal

structured illumination microscopy

MARCEL LAHRBERG,1 MANDEEP SINGH,2 KEDAR KHARE,2 AND BALPREET SINGH AHLUWALIA1,*

1Department of Physics and Technology, University of Tromsø, Tromsø N-9037, Norway

2Department of Physics, Indian Institute of Technology Delhi, New Delhi 110016, India

*Corresponding author: [email protected]

Received 6 September 2017; revised 31 December 2017; accepted 31 December 2017; posted 5 January 2018 (Doc. ID 305681);

published 2 February 2018

Structured illumination microscopy is able to improve the spatial resolution of wide-field fluorescence imaging by applying sinusoidal stripe pattern illumination to the sample. The corresponding computational image reconstruction requires precise knowledge of the pattern’s parameters, which are its phase (ϕ) and wave vector (p). Here, a computationally inexpensive method for estimation ofpfrom the raw data is proposed and illustrated with simulations. The method estimates p through a selective discrete Fourier transform at tunable subpixel precision. This results in an accuratepestimation for all the illumination patterns and subsequently improves the superresolution image recovery by a factor of 10 around sharp edges as compared to an integer pixel approach.

The technique as presented here is of major interest to the large variety of custom-build systems that are used. The feasibility of the presented method is proven in comparison with published data. © 2018 Optical Society of America OCIS codes:(100.6640) Superresolution; (180.2520) Fluorescence microscopy; (100.2000) Digital image processing; (100.2650) Fringe analysis.

https://doi.org/10.1364/AO.57.001019

1. INTRODUCTION

Wide-field fluorescence microscopy is limited in its maximum spatial resolution to what is commonly known as the Abbe diffraction limit [1]. The diffraction limit is a result of the finite range of spatial frequencies that a microscope’s objective can capture depending on its aperture. The 2D image formation under plain illumination can be formulated as a convolution (⊗), giving Dr SrI⊗hr, with the acquired image D, the sample S, the plain illumination intensityI, the point spread function (PSF) h and the spatial coordinater. In the Fourier transform of this expression, the convolution is replaced by a multiplication and vice versa D˜k I˜k⊗ S˜kh˜k, where tilde (∼) indicates the Fourier transform, k is the Fourier space coordinate or spatial frequency, and h˜ is called the optical transfer function (OTF), which has the property of limiting the highest spatial frequency of the sample represented in the image to a cutoff frequencykkk2≤kmaxand thus the maximum resolution of the image. Introducing non- uniform illumination of the sample will mix high spatial fre- quency information lying beyond the OTF’s support into its passband [2]. In structured illumination microscopy (SIM), this idea can be used by implementing a sinusoidal stripe pattern illumination. It is described by a wave vector

ppxxpyy, with the unit vectors kˆx and kˆy, that determines a pattern angle

γarctanpy∕px; (1) a fringe spacing of

L p2xp2y−1∕2; (2) and a phaseϕyielding the pattern’s shift along the wave vector.

Computational image reconstruction upon raw data acquisition may now separate spatial frequency components shifted from their original position into the passband and those naturally lying within the passband [3]. Relocating shifted components to their original position eventually results in a larger informa- tion content in the Fourier domain and equivalently in a higher resolution of the reconstructed image. For a single SIM reconstruction, multiple raw images of the sample with differ- ent illumination patterns are needed. In the 2D case, a typical configuration of three different illumination wave vectors p (with constant fringe period and three different orientations) and three different phasesϕeach yielding a total of nine images can be used to reconstruct one image. Image reconstruction in SIM for the described stripe pattern illumination is well known and can be derived from the more general 3D case [4]. Software

1559-128X/18/051019-07 Journal © 2018 Optical Society of America

Provided under the terms of the OSA Open Access Publishing Agreement

(2)

implementations for SIM reconstruction are readily available [5,6]. Given a sinusoidal illumination pattern in the object plane, its wave vectorpand phaseϕneed to be known for each of the raw data images to perform the well-established direct reconstruction. Estimation of p and ϕ is a critical task in SIM and is addressed here because a wrong parameter estima- tion for one of the nine raw data images is sufficient to corrupt the overall reconstruction. Common methods used to estimate the phase rely on precise knowledge of the wave vector [7–10]

or require the pattern phases to be equally distributed [4,6].

This means that an incorrect estimation ofpwill inevitably lead to a wrong value forϕif no further assumptions on the phase distribution can be made and thus prevent correct image reconstruction. Furthermore, some of the methods for param- eter estimation involve iterative steps that come with an in- creased computational cost [6,7]. This problem is usually addressed by gaining experimental control over the illumina- tion pattern, using expensive hardware like spatial light mod- ulators, vibration-free suspension systems, and piezo actuators to introduce predefined phase shifts. The idea of the proposed method is to determine the wave vector p, based on the raw data images in a noniterative way at a precision that is sufficient to apply a direct solution for the phase estimation as presented by Wicker [8].

As can be seen in Fig.1, the sinusoidal illumination pattern results in three peaks in the Fourier spectrum of each input image, and p is estimated by localizing these peaks. Because the input images are real valued, one peak will be located at the center (zero frequency), and the other two peaks will be distributed symmetrically around the center along the vector pin the Fourier space. In essence, the algorithm presented here localizes one of the outer peaks with subpixel precision in the absolute value map of the Fourier transform. First a conven- tional Fourier transform as given by the fast Fourier transform (FFT) is applied on the raw image. To rule out contributions of the low frequencies, a mask is applied. Frequencies smaller than 95% of the actual pattern frequency are masked. This corre- sponds to a rough estimate in an actual setup. The maximum in the masked FFT image is identified with integer pixel precision offered by the FFT routine. Then the Fourier trans- form in a small region around the peak position with a higher sampling is calculated, where the peak can be localized with improved precision. As opposed to padding the raw image with zeros prior to applying the FFT, which increases the precision of the peak localization in the same way albeit at a high com- putational cost, the proposed method calculates the Fourier transform in a significantly smaller area at a specific sampling rate around the pre-estimated peak location. This reduces the computational cost to a fraction of an approach based on zero padding [11,12].

In Section2, the theoretical background for sinusoidal SIM, including current methods of parameter estimation and the proposed subpixel peak detection for SIM, is described. In Section3, the presented method is applied to simulated data, and the results are compared to published data. Finally, Section4provides concluding remarks on where the presented method integrates within published methods for parameter estimation.

2. THEORY

The theoretical background is described widely using the notation of Wicker et al. [7,8]. First, the general framework for SIM using a sinusoidal illumination pattern is presented.

Then an overview of current parameter estimation methods is outlined, and the proposed approach for computationally in- expensive peak localization at subpixel precision is presented.

A. Sinusoidal SIM

Given a sinusoidal illumination pattern, the image formation can be described as

Dr SrIr⊗hr; (3) where

Ir X1

m−1amexpim2πprϕ (4) denotes the illumination pattern with the modulation depth am. The Fourier transform ofDrcan be written as Fig. 1. Illustration of the subpixel peak localization in Fourier space.

Panel (a) shows a raw data image of the sample pirate under stripe pattern illumination as described in the text. The edges of the image have been dampened to avoid discontinuities. In (b), the Fourier spec- trum of (a) calculated by the FFT routine is shown. The pattern wave vectorpis indicated in green. Estimatingpbased on the integer pixel location of the maximum in the Fourier spectrum will lead to a peak location mismatch as shown in the cropped Fourier spectrum (c). The red cross is the location of the maximum, the green cross the actual peak location based on the numerical value of the fringe period and orientation used. Panel (d) shows the result of the proposed selective Fourier transform of (a). The center has been selected to be the location of the maximum found in (c). The upsampling factor is α10, and the size of the area is the same as in (c). Now the maximum (red) is much closer to the actual peak position (green).

(3)

D˜k X1

m−1

expimϕamS˜k−mph˜k

|fflfflfflfflfflfflfflfflfflfflfflfflffl{zfflfflfflfflfflfflfflfflfflfflfflfflffl}

C˜mk

: (5)

It can be seen thatD˜kcontains frequency components or bandsS˜mk S˜k−mpthat are shifted bympwith respect to their original position in frequency space prior to multipli- cation with the OTF. In this way, high spatial frequency components of the sample that are not observable under plain illumination are transferred into the image, although the bands are shifted and summed up. By takingN images of the sample with different phases ϕn with n1;…; N, the resulting Fourier transforms of the images D˜nkcan be written as

D˜k MC˜k; (6) with the acquired images in the vector D˜ D˜1;…;D˜N, the matrixMnmexpimϕn, and a vectorC˜k C˜−1;C˜0; C˜1. If the inverse ofM(M−1) exists, the different compo- nents can be separated by

C˜k M−1D˜k: (7) The final image is the inverse Fourier transform ofSˆ˜k, the final estimate in the Fourier domain. It is obtained by shifting each band to its original position and recombining them using a generalized Wiener filter:

Sˆ˜k P

m;damm;dkmpdkmpd P

m;d

jamh˜kmpdj2w Ak: (8)

The Wiener filter reduces the degrading influence of the OTF and weights the bands in regions where they overlap according to their expected SNR. The Wiener parameter w is determined empirically, Ak is an apodization function decreasing linearly from unity at the center to zero near the end of the extended OTF support, shaping the overall spectrum to prevent ringing artifacts in the final image, and the asterisk () indicates the complex conjugate. Because the resolution im- provement only takes place in the direction ofp, the process of image acquisition and band separation is repeated for different orientationsd to obtain isotropic resolution enhancement. As can be seen from Eqs. (7) and (8), the phasesϕnand the wave vectorspneed to be known to perform the reconstruction.

B. Conventional Parameter Estimation Techniques Following Gustafssonet al.[4] and Mülleret al.[6], if an equi- distant phase distribution ofϕncan be assumed, retrieval ofpis straightforward. Then Eq. (7) can be applied by using these relative phases inMthat differ from the true phases only by a constant offsetϕΔ. Given a large enough OTF support with respect top, and the OTF corrected componentsC˜m0 C˜mhjh2˜, C˜ 10 will have an overlapping region k0 withC˜00, where they will be different by a complex factoram0 only for the correctp (see Fig.2). Thus, by maximizing the cross correlation (⋆) for m≠0,

00⋆C˜m0p X

k0

00k0m0k0mp; (9)

the vectorpcan be determined, and the complex factor am0 is calculated as

am0 P

k000k0m0k0mp P

k0

jC˜0k0j2 : (10) Furthermore,ϕΔargam0, witharg·giving the angle of a complex number, andam jam0jfora01. The workflow described so far is applied when equidistant phase steps within one pattern orientation are provided in the experimental setup.

However, if the assumptions about the phase distribution cannot be made butpis known, the phase of the illumination pattern can be determined based on the phase of the peak atp inD˜n as

ϕnargD˜np; (11) as described by Shroffet al.[9,10]. Alternatively the spectrum’s autocorrelation can be evaluated at p, and the phase can be determined as

ϕnargD˜n0⊙D˜n0p; (12) as described by Wicker, where D˜ is filtered by the complex conjugated OTF yieldingD˜n0n to reduce the influence of noise and asymmetries in the PSF [8]. Here⊙represents the autocorrelation. Due to its noniterative and flexible nature, it is the method of choice for the work presented here. It is applied after pis estimated as described in Section2.C.

A related method is mentioned for the sake of completeness.

It determines the phase values by an iterative optimization. The idea is that two separated bandsC˜ikandC˜jk−lp(lbeing an integer) should not have common information in the region where they overlap fori≠jlif they are separated correctly.

They have similar components, ifM in Eq. (7) contains the wrong phase values. The phases in the separation matrix M are then found by minimizing a cost function that evaluates the cross correlation in the overlapping regions [7].

C. Subpixel Peak Detection

Because it may not be possible to do a parameter estimation based on a given prior knowledge like the phase distribution or the pattern wave vector, these parameters need to be extracted from the acquired raw data [13]. We address the situation where no assumption can be made about phase Fig. 2. Spectral overlap. The separated componentsC˜00 andC˜10 in Fourier space (kx,ky). IfC˜10 is shifted byp(red arrow) to its correct position in Fourier space, both bands will have a region of overlapk0in which they differ only by a complex factor [see Eq. (10)].

(4)

distribution, and the values ofpare unknown to begin with.

We propose to reconstructpusing the approach we describe as follows and then use the reconstructed value ofpwith Eq. (12) for reconstructing the phase valueϕ. This way the precision of the peak localization does not only govern the accuracy for the determined value ofpbut also the fidelity of the estimatedϕ. One approach is to localize the peaks inD˜kthat come from the sinusoidal illumination pattern. For a discretized image consisting of Nx×Ny pixels (Nx;y being even integers) with indicesx 1;…; Nxandy 1;…; Nyand spatial coordi- nates from−N2x;ytoN2x;y−1px in steps of 1 px inxˆandyˆ direction, the conventional FFT returns an array of the same size with indices ux and vy, which correspond to fre- quency coordinates from −12px−1 to 12N1x;ypx−1 in steps of N1

x;ypx−1 in thekˆx andkˆy directions,kˆx and kˆy being fre- quency domain analogs ofxˆandy. The localization precision ofˆ a maximum in the FFT thus depends on the step sizeN1

x;y. This can be improved by padding the image with zeros prior to the Fourier transform. Depending on the padding size, this approach may become computationally expensive.

Our approach to this problem is to first localize the peaks in D˜kwithout any padding, giving the indicesu0; v0with a localization precision equal to the step sizeN1

x;yin the frequency domain. In the second step, the Fourier transform of the input image is calculated in a selected region in the frequency domain around the position of the peak with a chosen oversampling [11,12] using a twofold matrix multiplication:

D˜u;ˆ vˆ exp −2πi

Nyy

Dx;yexp −2πi

Nx x

; (13) where expZ is the exponential of each element in arrayZ. The indices inuˆandvˆcan now be chosen as fractional numbers around uo and v0. An adequate choice is to select an upsampling factorαand an area around the initial pixel loca- tion of 1.5 px in each direction such that u;ˆ vˆ −1.52 ;−1.52 1α;…;1.52α2;1.521αu0; v0 represent subpixel indices around the original position of the peak. The corre- sponding frequency space coordinates range fromf−12 N1x;y· u0; v01.52 −1gtof−12N1

x;y·u0;v01.52 −1−αN1x;ygpx−1 in steps ofαN1

x;ypx−1. The position of the maximum localization in D˜u;ˆ vˆwill then be as precise as if it had been localized in the FFT of the original image after increasing its size by a factor of α in both directions using zero padding at a negligible computational cost. Performing the peak localization for a set of nine raw input images, for a fivefold oversampling the computation times are 0.03 s and 0.43 s and for a tenfold oversampling 0.04 s and 1.80 s for the subpixel approach and the zero padding approach, respectively, on an Intel Core i7 at 2.10 GHz, using MATLAB. With respect to the computational complexity for a raw SIM image of dimen- sion M×M, a fivefold zero padded FFT in both row and column directions will have a computational complexity of O25M2 log25M2, whereas the proposed method has complexity of O5M2. For a tenfold oversampling, these numbers are O100M2 log100M2 versus O10M2. The

timing numbers provided can be seen in this context. When the oversampling factor is much smaller thanM, as in this case, this is significant computational gain for achieving the same level of accuracy.

3. SIMULATIONS

To test the subpixel precision estimation of the illumination pattern, raw data images for two different samples (Siemens star and pirate; see Fig.3) have been simulated, similar to what was done by Wickeret al.[7,8]. In the first step, the samples (pixel size of 65 nm) have been scaled such that their brightest pixel would have a photon count of 5×101,5×102,5×103, and 5×104(four data sets), and the darkest photon count of zero, to add noise of the Poisson distribution in the last step. No further offset or noise was added. The illumination patterns of 200 nm fringe spacing are generated based on 20 randomly distributed orientation anglesγ. For each orientation, a set of three phases (0°, 120°, and 240°, with a random variation of a Gaussian distribution at a standard deviation of 10° for each phase step) is generated. To maintain the maximum possible photon count in each raw data image, the sinusoidal illumina- tion patterns are scaled such that they only vary in a range from zero to one. This way 60 raw data images are simulated per set.

Each image is convolved with a point spread function, simu- lated using a 2D distribution based on the Bessel function of first kind and first order [14], given a numerical aperture of the imaging objective ofNA1.4. The emission wavelength was set toλem515 nm. Finally, noise is simulated based on the Poisson distribution. For each raw data image, the parameter estimation was performed as described previously for upsam- pling factors ofα1–10. First the peaks in the Fourier do- main that come from the sinusoidal illumination pattern in real space were localized applying Eq. (13). From those peak positions, the orientation and fringe period of the illumination pattern in each raw data image are calculated using Eqs. (1) and (2).

The orientation γ as calculated from the peak location in Fourier space deviates from the actual orientation γˆ by Δγ jγˆ−γj. Although only 20 different values forγwere used for the simulations, for each individual raw data image, the deviation Δγ was calculated because the pattern phase and noise may change the result of the peak localization. Thus, each raw data image yields a value for γ andΔγ. In Fig.4(a), the

Fig. 3. Samples (a) pirate and (b) Siemens star as they have been used in the simulations. They are represented in a size of 256×256 px.

(5)

mean (solid line) and standard deviation (shaded area) of the 60 values forΔγin a data set are presented for parameter estima- tion based on peak localization at different oversampling factors αand for the two different samples, for data sets simulated with a maximum photon count of 50. This result does not show significant variations for the other selected photon counts and is thus exemplary.

Similar to the orientation, the fringe spacingLas calculated per Eq. (2) has a deviation from the initially set 200 nm. This deviation is calculated as ΔLjL−200 nmj200 nm to free the measure from scaling. The evaluation in Fig.4(b)shows the mean (solid line) and standard deviation (shaded area) of the 60 values for ΔL in a data set. This evaluation is presented for parameter estimation based on peak localization at different oversampling factors α and for two different samples. The underlying data sets are simulated using a maximum photon count of 50. As for the orientation deviation, this result is exemplary for all se- lected photon counts. The pattern phase for each raw data im- age is calculated with Eq. (12) and the determined value forp. The values for the phases are evaluated following [7,8]. For each orientationγ, the deviation of the three phases was calcu- lated asδϕϕ−ϕˆ. The relative errorErγfor one orientation is then calculated as the standard deviation of all threeδϕγ in a subset. As described in Refs. [7,8], this way a global phase offset is rejected. The mean (solid line) and standard deviation (shaded area) of Erγ are shown in Fig. 5as a function ofα.

A second evaluation of the estimated phases is shown in Fig. 6. Instead of the relative errorErγ, the absolute error Eaγ

is presented. It is calculated as the mean of the absolute values of all threeδϕγin a subset. This way a global phase offset is not rejected in the evaluation.

Finally, Fig.7shows the influence of the proposed param- eter estimation at subpixel precision. A raw data set was simulated as described earlier with three pattern angles of 11°, 71°, and 131° (similar to Shroffet al.[9]) and three phases each at a maximum photon count of 5×104. The data sets used to generate actual image reconstructions only contain nine raw images. Although the pattern angles are selected such that an isotropic resolution improvement can be achieved, the se- lected phases are still displaced from an equidistant distribution as described previously. In addition to the SIM raw data, a wide-field image under plain illumination was simulated,

and the result of a Wiener deconvolution is shown in Fig. 7(a). The SIM reconstruction based on the actual input parameters yields the optimal result in Fig. 7(b) with the ex- pected resolution enhancement compared to Fig. 7(a).

Figures 7(c) and 7(d) show the reconstruction results based on parameter estimation for oversampling factors of 1 and 10. Figures 7(e) and 7(f ) show the deviations of the results in Figs.7(c)and7(d)from Fig.7(b), respectively. It is the ab- solute value of the difference of the values in corresponding pixels, and it can be seen that a reconstruction based on sub- pixel precision parameter estimation at an oversampling factor of 10 yields a result whose deviation from the optimal Fig. 4. (a) Deviation of the pattern orientation and (b) fringe spac-

ing calculated from the detected peak position from the actual value for oversampling factors of 110. The calculations are performed for a maximum expected photon count of5×101 in the brightest pixel.

The solid line represents the mean deviation for all 60 samples, and the shaded area shows the standard deviation. This is done for two different samples [Siemens star (red) and pirate (blue)].

Fig. 5. Relative phase error at oversampling of 110 for four differ- ent photon levels (a)5×101, (b)5×102, (c)5×103, and (d)5×104, and two different samples [Siemens star (red) and pirate (blue)]. The solid lines represent the mean value and the shaded areas the standard deviation of the phase error.

Fig. 6. Absolute phase error at oversampling of 110 for four differ- ent photon levels (a)5×101, (b)5×102, (c)5×103, and (d)5×104, and two different samples [Siemens star (red) and pirate (blue)]. The solid lines represent the mean value and the shaded areas the standard deviation of the phase error.

(6)

reconstruction can be reduced by almost 1 order of magnitude around sharp edges in the image. For the presented data, an oversampling larger than 10 does not improve the result of the reconstruction in terms of the shown deviation. The same evaluation has been done for the Siemens star as presented in Fig.8. Here the absolute deviations of the reconstructions for

one- and tenfold oversampling are shown in Figs.8(a)and8(b) similar to Figs.7(e)and 7(f ).

4. RESULTS AND DISCUSSION

It can be shown that the proposed subpixel precision localiza- tion of a maximum in the Fourier domain is suitable to deter- mine the wave vector of a sinusoidal pattern imposed on a structure in real space (Fig.4). This method achieves an im- provement in precision as a method based on zero padding would do, although at a fraction of the computational cost (time and memory), especially at increased oversampling fac- tors. The benefit of this approach can be directly shown when doing phase estimation on 2D SIM data using Eq. (12).

In the introduction of the noniterative phase estimation [8], its feasibility was demonstrated in comparison with an iterative approach [7] that would determine the relative phases in a data set, and a reference to [2] and [15] is given for the estimation of the global phase offset to get the absolute phases. Figure 5 shows that the quality of the phase estimation does not change significantly by increasing the precision of the wave vector es- timation in the tested range, and the results, at least for the pirate sample, correspond well to published results in Figs.2(a) and2(b)of Ref. [8] for the single-step approach at maximum expected number of photons of5×101,5×102,5×103, and 5×104. Disregarding a global phase offset, localizing the pat- tern wave vector to conventional pixel precision is sufficient, as the error drops below 1° for realistic SNRs.

However, the absolute phase error as shown in Fig.6sug- gests that if Eq. (12) is to be applied for phase estimation, the presented method is of major importance. The high-precision calculation of the wave vector based on subpixel peak localiza- tion enables the phase estimation without an additional step to find a global phase offset. A difference in the behavior of both samples is visible. The Siemens star sample enables good phase detection even at lower oversampling. Phase estimation, except for the lowest simulated SNR, performs well. The more gen- eralized sample pirate shows significant improvement with an increased oversampling.

Applying subpixel precision peak localization in the Fourier domain to determine the orientation and fringe spacing of sinusoidal patterns in real space is presented and its feasibility demonstrated on simulated data. Especially the application of the results in an established method for phase estimation shows that this is a way for parameter estimation in sinusoidal structured illumination microscopy for comparably fine (i.e., 200 nm) illumination patterns.

The benefits are twofold because the whole work flow of determining the necessary parameters in SIM reconstruction does not require prior knowledge of the phase distribution or the pattern wave vector, nor does it depend on iterative proc- esses. Furthermore, it was demonstrated that the deviation from the optimal reconstruction can be reduced by about 1 order of magnitude, thus producing a more accurate result us- ing the subpixel peak detection method. In addition, the sav- ings in computational time for SIM reconstruction provided by the proposed subpixel method will be beneficial for real-time reconstruction of the SIM images if the pattern parameters need to be estimated prior to reconstruction.

Fig. 7. Reconstruction of simulated SIM data. For a raw data set of nine images (three orientations with three phases each), parameter es- timation and reconstruction were performed for oversampling factors of 1 and 10. Panel (a) shows the result of a conventional wide-field deconvolution under plain illumination. The SIM reconstruction with known pattern parameters in (b) shows the expected resolution en- hancement. In (c) and (d), the image reconstruction based on the pro- posed parameter estimation for oversampling of 1 and 10, respectively, is shown. In (e) and (f ), the absolute deviation of the reconstruction as shown in (c) and (d) from the reconstruction with known pattern parameters is presented.

Fig. 8. Similar to Figs.7(e)and7(f ), the absolute deviation of the reconstruction from the reconstruction with known pattern parame- ters is presented for oversampling factors of (a) 1 and (b) 10.

(7)

Funding. H2020 European Research Council (ERC) (336716); Norwegian Centre for International Cooperation in Education, SIU Norway (INCP-2014/10024); University Grants Commission (UGC), India.

Acknowledgment. The authors would like to thank Krishna Agarwal for scientific review of the manuscript. BSA acknowledges ERC and the Norwegian Centre for International Cooperation in Education, SIU-Norway. KK acknowledges University Grant Commission, India funding.

REFERENCES

1. E. Abbe,Beiträge zur Theorie des Mikroskops und der mikroskopi- schen Wahrnehmung,” Archiv für mikroskopische Anatomie 9, 413–418 (1873).

2. M. G. L. Gustafsson,“Surpassing the lateral resolution limit by a factor of two using structured illumination microscopy, J. Microsc.198, 82–87 (2000).

3. R. Heintzmann and C. G. Cremer,“Laterally modulated excitation microscopy: Improvement of resolution by using a diffraction grating,”

Proc. SPIE3568, 185196 (1999).

4. M. G. L. Gustafsson, L. Shao, P. M. Carlton, C. J. R. Wang, I. N.

Golubovskaya, W. Z. Cande, D. A. Agard, and J. W. Sedat,

“Three-dimensional resolution doubling in wide-field fluorescence microscopy by structured illumination,Biophys. J.94, 49574970 (2008).

5. P. Křížek, T. Lukeš, M. Ovesný, K. Fliegel, and G. M. Hagen,

“SIMToolbox: A MATLAB toolbox for structured illumination fluores- cence microscopy,Bioinformatics32, 318320 (2015).

6. M. Müller, V. Mönkemöller, S. Hennig, W. Hübner, and T. Huser,

“Open-source image reconstruction of super-resolution structured il- lumination microscopy data in ImageJ,Nat. Comms.7, 10980 (2016).

7. K. Wicker, O. Mandula, G. Best, R. Fiolka, and R. Heintzmann,Phase optimisation for structured illumination microscopy,”Opt. Express21, 2032–2049 (2013).

8. K. Wicker,Non-iterative determination of pattern phase in structured illumination microscopy using auto-correlations in Fourier space,”Opt.

Express21, 24692–24701 (2013).

9. S. A. Shroff, J. R. Fienup, and D. R. Williams,“Phase-shift estimation in sinusoidally illuminated images for lateral superresolution,J. Opt.

Soc. Am. A26, 413424 (2009).

10. S. A. Shroff, J. R. Fienup, and D. R. Williams,“Lateral superresolution using a posteriori phase shift estimation for a moving object:

Experimental results,J. Opt. Soc. Am. A27, 17701782 (2010).

11. R. Soummer, L. Pueyo, A. Sivaramakristnan, and R. J. Vanderbei,

“Fast computation of Lyot-style coronagraph propagation,”

Astrophys. J. Suppl. Ser.167, 81–99 (2006).

12. M. Singh and K. Khare, Accurate efficient carrier estimation for single-shot digital holographic imaging, Opt. Lett. 41, 48714874 (2016).

13. L. Condat, J. Boulanger, N. Pustelnik, S. Sahnoun, and L.

Sengmanivong, A 2-D spectral analysis method to estimate the modulation parameters in structured illumination microscopy,” in IEEE 11th International Symposium on Biomedical Imaging (ISBI), 2014, vol.11, pp. 604–607.

14. E. Mudry, K. Belkebir, J. Girard, J. Savatier, E. Le Moal, C. Nicoletti, M. Allain, and A. Sentenac,Structured illumination microscopy using unknown speckle patterns,”Nat. Photonics6, 312–315 (2012).

15. J. T. Frohn,“Super-resolution fluorescence microscopy by structured light illumination Ph.D. dissertation (Swiss Federal Institute of Technology, 2000).

Referanser

RELATERTE DOKUMENTER

This research has the following view on the three programmes: Libya had a clandestine nuclear weapons programme, without any ambitions for nuclear power; North Korea focused mainly on

The Norwegian Defence Research Establishment (FFI) has for decades been doing hydrographical surveillance in prioritized areas. In connection with this work, FFI has also

The system can be implemented as follows: A web-service client runs on the user device, collecting sensor data from the device and input data from the user. The client compiles

3.1 Evolution of costs of defence 3.1.1 Measurement unit 3.1.2 Base price index 3.2 Operating cost growth and investment cost escalation 3.3 Intra- and intergenerational operating

A COLLECTION OF OCEANOGRAPHIC AND GEOACOUSTIC DATA IN VESTFJORDEN - OBTAINED FROM THE MILOC SURVEY ROCKY ROAD..

Based on the above-mentioned tensions, a recommendation for further research is to examine whether young people who have participated in the TP influence their parents and peers in

1) Analysis of the Mid-Sound Stations: Table 4.1 gives the computed PSD of time series C1, E1 and H1 at three different frequencies. The PSD of the z-component at 0.001 Hz is

An abstract characterisation of reduction operators Intuitively a reduction operation, in the sense intended in the present paper, is an operation that can be applied to inter-